Using RNA-Seq (Mortazavi et al., 2008), high-resolution genome-wide maps of the mouse transcriptome across multiple mouse (C57Bl/6) tissues and primary cells were generated.
This is a composite track that contains multiple data types (views). For each view, there are multiple subtracks that display individually on the browser. Instructions for configuring composite tracks are here. This track contains the following views:
Cells were grown according to the approved ENCODE cell culture protocols.
These data were generated and analyzed in Bing Ren's laboratory at the Ludwig Institute for Cancer Research.
Contact: Yin Shen
Mortazavi, A., Williams, B.A., McCue, K., Schaeffer, L., and Wold, B. Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods 2008 May; 5: 621-628.
Parkhomchuk, D., Borodina, T., Amstislavskiy, V., Banaru, M., Hallen, L., Krobitsch, S., Lehrach, H., and Soldatov, A. Transcriptome analysis by strand-specific sequencing of complementary DNA. Nucleic Acids Res 2009 Jun; 37(18): e123.
Trapnell C, Pachter L, and Salzberg SL TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 2009 Feb; 25(9): 1105-1111.
Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, and Pachter L. Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nature 2010 Feb; 28: 511-515.
Data users may freely use ENCODE data, but may not, without prior consent, submit publications that use an unpublished ENCODE dataset until nine months following the release of the dataset. This date is listed in the Restricted Until column on the track configuration page and the download page. The full data release policy for ENCODE is available here.